SRX9187412
GSM4802504: MiaPaCa2 NTC Santa Cruz, rep1; Homo sapiens; ChIP-Seq

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
HDAC1

Cell type

Cell type Class
Pancreas
Cell type
MIA Paca-2
Primary Tissue
Pancreas
Tissue Diagnosis
Carcinoma

Attributes by original data submitter

Sample

source_name
MiaPaCa2 cells
cell line
MiaPaCa2
treatment
Scrambled non-targeting sgRNA
chip antibody
Santa Cruz Biotechnologies sc-81598 HDAC1(10E2)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
ChIP-seq protocol Myers Lab: https://www.encodeproject.org/documents/73c95206-fc02-41ea-93e0-a929a6939aaf/ ChIP-seq protocol Myers Lab; used antibodies: Santa Cruz Biotechnologies sc-81598 HDAC1(10E2) and Invitrogen HDAC1 Polyclonal Antibody PA1-860

Sequencing Platform

instrument_model
Illumina NovaSeq 6000

Where can I get the processing logs?

Read processing pipeline log

hg38

Number of total reads
72279796
Reads aligned (%)
87.5
Duplicates removed (%)
11.6
Number of peaks
5958 (qval < 1E-05)

hg19

Number of total reads
72279796
Reads aligned (%)
86.8
Duplicates removed (%)
13.0
Number of peaks
5327 (qval < 1E-05)

Base call quality data from DBCLS SRA